Fix overlap runs (#125)

* Update nb

* Update script

* Update script

* Rename

* Update script

* Update script

* Remove warning

* Ignore minors when extracting MAH

* Fix paths bug

* Move notebooks

* Move files

* Rename and delete things

* Rename file

* Move file

* Rename things

* Remove old print statement

* Add basic MAH plot

* Add random MAH path

* Output snapshot numbers

* Add MAH random extraction

* Fix redshift bug

* Edit script

* Add extracting random MAH

* Little updates

* Add CB2 redshift

* Add some caching

* Add diagnostic plots

* Add caching

* Minor updates

* Update nb

* Update notebook

* Update script

* Add Sorce randoms

* Add CB2 varysmall

* Update nb

* Update nb

* Update nb

* Use catalogue HMF

* Move definition of radec2galactic

* Update nb

* Update import

* Update import

* Add galatic coords to catalogues

* Update nb

scripts_plots/plot_vobs.py

@@ -1,89 +0,0 @@
-# Copyright (C) 2023 Richard Stiskalek
-# This program is free software; you can redistribute it and/or modify it
-# under the terms of the GNU General Public License as published by the
-# Free Software Foundation; either version 3 of the License, or (at your
-# option) any later version.
-#
-# This program is distributed in the hope that it will be useful, but
-# WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General
-# Public License for more details.
-#
-# You should have received a copy of the GNU General Public License along
-# with this program; if not, write to the Free Software Foundation, Inc.,
-# 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-
-from os.path import join
-
-import matplotlib.pyplot as plt
-import numpy
-import scienceplots  # noqa
-from tqdm import tqdm
-
-import csiborgtools
-import plt_utils
-
-
-def observer_peculiar_velocity(MAS, grid, ext="png"):
-    paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)
-    nsims = paths.get_ics("csiborg")
-
-    for n, nsim in enumerate(nsims):
-        fpath = paths.observer_peculiar_velocity(MAS, grid, nsim)
-        f = numpy.load(fpath)
-
-        if n == 0:
-            data = numpy.full((len(nsims), *f["observer_vp"].shape), numpy.nan)
-            smooth_scales = f["smooth_scales"]
-
-        data[n] = f["observer_vp"]
-
-    for n, smooth_scale in enumerate(tqdm(smooth_scales,
-                                          desc="Plotting smooth scales")):
-        with plt.style.context(plt_utils.mplstyle):
-            fig, axs = plt.subplots(ncols=3, figsize=(3.5 * 3, 2.625),
-                                    sharey=True)
-            fig.subplots_adjust(wspace=0)
-            for i, ax in enumerate(axs):
-                ax.hist(data[:, n, i], bins="auto", histtype="step")
-                mu, sigma = numpy.mean(data[:, n, i]), numpy.std(data[:, n, i])
-                ax.set_title(r"$V_{{\rm obs, i}} = {:.3f} \pm {:.3f} ~ \mathrm{{km}} / \mathrm{{s}}$".format(mu, sigma)) # noqa
-
-            axs[0].set_xlabel(r"$V_{\rm obs, x} ~ [\mathrm{km} / \mathrm{s}]$")
-            axs[1].set_xlabel(r"$V_{\rm obs, y} ~ [\mathrm{km} / \mathrm{s}]$")
-            axs[2].set_xlabel(r"$V_{\rm obs, z} ~ [\mathrm{km} / \mathrm{s}]$")
-            axs[0].set_ylabel(r"Counts")
-
-            fig.suptitle(r"$N_{{\rm grid}} = {}$, $\sigma_{{\rm smooth}} = {:.2f} ~ [\mathrm{{Mpc}} / h]$".format(grid, smooth_scale)) # noqa
-
-            fig.tight_layout(w_pad=0)
-            fout = join(plt_utils.fout,
-                        f"observer_vp_{grid}_{smooth_scale}.{ext}")
-            fig.savefig(fout, dpi=plt_utils.dpi, bbox_inches="tight")
-            plt.close()
-
-    with plt.style.context(plt_utils.mplstyle):
-        fig, axs = plt.subplots(ncols=3, figsize=(3.5 * 3, 2.625))
-        for i, ax in enumerate(axs):
-
-            ymu = numpy.mean(data[..., i], axis=0)
-            ystd = numpy.std(data[..., i], axis=0)
-            ylow, yupp = ymu - ystd, ymu + ystd
-            ax.plot(smooth_scales, ymu, c="k")
-            ax.fill_between(smooth_scales, ylow, yupp, color="k", alpha=0.2)
-
-            ax.set_xlabel(r"$\sigma_{{\rm smooth}} ~ [\mathrm{{Mpc}} / h]$")
-
-        axs[0].set_ylabel(r"$V_{\rm obs, x} ~ [\mathrm{km} / \mathrm{s}]$")
-        axs[1].set_ylabel(r"$V_{\rm obs, y} ~ [\mathrm{km} / \mathrm{s}]$")
-        axs[2].set_ylabel(r"$V_{\rm obs, z} ~ [\mathrm{km} / \mathrm{s}]$")
-        fig.suptitle(r"$N_{{\rm grid}} = {}$".format(grid))
-
-        fig.tight_layout(w_pad=0)
-        fout = join(plt_utils.fout, f"observer_vp_summary_{grid}.{ext}")
-        fig.savefig(fout, dpi=plt_utils.dpi, bbox_inches="tight")
-        plt.close()
-
-
-if __name__ == "__main__":
-    observer_peculiar_velocity("PCS", 512)